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Merge pull request #71 from supernord/jg_updates
Activity and resource updates
2 parents 4f1c8b2 + cba304a commit 4681b49

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‎_data/news.yml‎

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- name: "NCI Data Collection now available!"
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date: 2026-02-23
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url: https://dx.doi.org/10.25914/q48c-9a86
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description: "This collection replicates key reference databases used for protein structure prediction and analysis. These resources enable NCI users to leverage deep learning models for molecular structure prediction. The datasets support AlphaFold3, AlphaFold2, Boltz, RoseTTaFold-All-Atom, ESMFold and HelixFold3 structure prediction tools."
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description: "This collection replicates key reference databases used for protein structure prediction and analysis. These resources enable NCI users to leverage deep learning models for molecular structure prediction. The datasets support AlphaFold3, AlphaFold2, Boltz, RoseTTaFold-All-Atom, ESMFold and HelixFold3 structure prediction tools."
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- name: "ASBC @ the AI for Science Hackathon"
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date: 2026-03-26
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url: https://www.biocommons.org.au/news/ai-for-science-hackathon-2026
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description: "Australian Structural Biology Computing (ASBC) community (UNSW Structural Biology Facility, WEHI, and the Monash AI Protein Design Program) contributed to the AI for Science Hackathon, bringing their expertise in optimising workflows for protein structure prediction and design."
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- name: "Foundations of protein structure training module now available!"
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date: 2026-04-17
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url: https://doi.org/10.6019/tol.foundations-protein-structure-t.2026.00001.1
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description: "A module added to the training material made available by EMBL-EBI. Module development was a collaboration between the ASBC community, BioCommons, and EMBL-EBI Protein Data Bank in Europe (PDBe)."

‎_data/sidebars/main.yml‎

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url: /community_resources
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- title: How-to Guides
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url: /guides
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- title: Workflows
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url: /workflows
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- title: External resources
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subitems:
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- title: Structure Prediction
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- title: Structure prediction
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url: /structure_prediction
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- title: Protein Design
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- title: Protein design
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url: /protein_design
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- title: Protein Search
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- title: Protein search
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url: /protein_search
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- title: Molecular Dynamics
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- title: Molecular dynamics
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url: /molecular_dynamics
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- title: Infrastructure
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url: /infrastructure
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- title: Events
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url: /events
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- title: News
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url: /news

‎_data/tool_and_resource_list.yml‎

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Type:
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- Reference database
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URL: https://cluster.foldseek.com/
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- Description: Reference data to support AI structural biology prediction models
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- Description: Reference data to support AI structural biology prediction models.
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Tag: Community resource
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Title: NCI Structural Biology AI Reference Collection
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Type:
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- Reference database
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Roadmap:
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- Roadmap deliverable 2
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URL: https://dx.doi.org/10.25914/q48c-9a86
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DOI: https://dx.doi.org/10.25914/q48c-9a86
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- Description: Online tutorial covering the principles of protein architecture and function
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- Description: Online tutorial covering the principles of protein architecture and function.
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Tag: Community resource
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Title: Foundations of protein structure tutorial
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Type:
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- Online tutorial
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Roadmap:
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- Roadmap deliverable 2 & 4
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URL: https://www.ebi.ac.uk/training/online/courses/foundations-protein-structure/
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DOI: https://doi.org/10.6019/tol.foundations-protein-structure-t.2026.00001.1
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- Description: A limited series of webinars from 2025 that shared strategies to get the best outcomes from protein design projects.
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Tag: Community resource
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Title: Protein design webinar series
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Type:
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- Webinar series
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Roadmap:
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- Roadmap deliverable 2
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URL: protein_design_seminars
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DOI: https://doi.org/10.5281/zenodo.17626498
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DOI: https://doi.org/10.5281/zenodo.17626498
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- Description: A nextflow pipeline with support for numerous structure prediction tools.
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Tag: Community resource
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Title: nf-core ProteinFold v2.0.0
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Type:
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- Workflow
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Roadmap:
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- Roadmap deliverable 3
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URL: nfcore_proteinfold
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DOI: https://doi.org/10.5281/zenodo.7437037

‎_includes/resource-table-category.html‎

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{%- else %}
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<td>{{tool.Title}}</td>
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{%- endif %}
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<td>{{tool.Description}}</td>
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<td>
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{{tool.Description}}
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{% if tool.Roadmap %}
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{%- for type in tool.Roadmap %}
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<button class="btn btn-light badge border border-dark text-dark mb-2 text-wrap text-center topic-badge">
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{{type}}
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</button>
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{%- endfor %}
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{%- endif %}
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</td>
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{% if tool.DOI%}
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<td><a href="{{tool.DOI}}">DOI</a></td>
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{%- else %}

‎index.md‎

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{% include tiles-simple.html target = "community_meeting" col = "1" %}
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#### All meeting dates
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- **11th March 2026**
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- **20th May 2026**
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- **29th July 2026**
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- **16th September 2026**
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- **4th November 2026**
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#### All meeting dates and speakers
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| Date | Speaker | Talk title |
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|------|--------------------------------------------------------------------------------------|---------------------------------------------------------------------------|
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| March 11th | **Biswa Prasanna Mishra**<br>(Griffith University) | Molecular Characterisation of the *Bacillus subtilis SpbK* antiphage defence system |
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| May 20th | **Cameron Gilchrist**<br>(Seoul National University) | Multiple protein structure alignment with FoldMason |
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| 29th July | TBA | TBA |
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| 16th September | **Tom Goddard**<br>(UCSF) | Predicting atomic structures using OpenFold 3 in ChimeraX |
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| 12th November | TBA | TBA |
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{% include callout.html type="note" content="These dates may change depending on other community events and the availability of speakers. " %}

‎pages/activities/ebi_module_dev.md‎

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---
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title: EMBL-EBI Foundations of Protein Structure module development
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description: Developing the content for an online EMBL-EBI tutorial covering the principles of protein architecture and function.
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type: Activity_in_progress
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type: Completed_activity
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roadmap_category: Global-connections
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contributors: [Jennifer Fleming, Kristina Gagalova, Johan Gustafsson, Michael Healy, Thomas Litfin, Paulyna Magaña, Katharine Michie]
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toc: false

‎pages/activities/nfcore_proteinfold.md‎

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---
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title: nf-core ProteinFold v2.0 Release
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description: Contribute towards, and locally deploy, v2.0 of nf-core ProteinFold workflow.
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type: Activity_in_progress
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title: nf-core ProteinFold v2.0.0 Release
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description: Contribute towards, and locally deploy, v2.0.0 of nf-core ProteinFold workflow.
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type: Completed_activity
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roadmap: A shared platform, or platforms (Roadmap D3A)
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roadmap_category: Shared-platform
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contributors: [Ziad Al-Bkhetan, Mitchell O'Brien, Joshua Storm Caley, Keiran Rowell, Thomas Litfin]
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toc: false
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redirect_from: /website/nfcore_proteinfold
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tiles:
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- title: "See version 2.0.0 of the nf-core/proteinfold workflow"
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url: https://nf-co.re/proteinfold/2.0.0/
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---
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{% include tiles-simple.html target = "tiles" col = "1" %}
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## Details
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- Molecular structure prediction tools require large reference databases and varied computational infrastructure.
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- Add miniature reference databases for fast troubleshooting.
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- Update documentation and metro-map.
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- Test for release.
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### In Progress
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- Review workflow outputs for all modes.

‎pages/activities/website_dev.md‎

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---
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title: Community website
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description: Development and maintenance of the Australian Structural Biology Computing (ASBC) community website.
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type: Activity_in_progress
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roadmap_category: Community-space
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contributors: [Johan Gustafsson, Thomas Litfin, Kate Michie]
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toc: false
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---
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## Details
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### Completed
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- Initial version of the website
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- Mechanisms for joining the community
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- Streamlined appearance and mechanics for all pages
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### In Progress
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- Sharing mechanism for computational workflows
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- Adding contributors
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### Future
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- Sharing mechanism for events
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- Sharing mechanism for both community resources and external resources

‎pages/resources/molecular_dynamics.md‎

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---
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title: Molecular Dynamics
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title: Molecular dynamics
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page_id: external_resources_md
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datatable: true
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toc: false

‎pages/resources/protein_design.md‎

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---
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title: Protein Design
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title: Protein design
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page_id: external_resources_protein_design
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datatable: true
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toc: false

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